Multiple sequence alignment - TraesCS6A01G053800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G053800 chr6A 100.000 2849 0 0 1 2849 27771664 27774512 0.000000e+00 5262.0
1 TraesCS6A01G053800 chr6A 87.449 486 56 4 1180 1661 609176277 609176761 3.210000e-154 555.0
2 TraesCS6A01G053800 chr6D 89.579 2687 123 56 1 2619 26349937 26352534 0.000000e+00 3265.0
3 TraesCS6A01G053800 chr6D 86.653 487 58 6 1180 1661 462422963 462423447 1.500000e-147 532.0
4 TraesCS6A01G053800 chr6D 92.715 151 11 0 2673 2823 459809049 459808899 4.780000e-53 219.0
5 TraesCS6A01G053800 chr6B 89.726 2297 120 47 1 2238 48550821 48553060 0.000000e+00 2828.0
6 TraesCS6A01G053800 chr6B 87.449 486 56 4 1180 1661 704890658 704891142 3.210000e-154 555.0
7 TraesCS6A01G053800 chr6B 93.478 184 12 0 2396 2579 48553117 48553300 1.010000e-69 274.0
8 TraesCS6A01G053800 chr6B 90.556 180 14 1 2673 2849 714961004 714961183 4.750000e-58 235.0
9 TraesCS6A01G053800 chr4D 80.461 2344 220 117 373 2579 1230086 1232328 0.000000e+00 1572.0
10 TraesCS6A01G053800 chr4D 83.636 110 5 4 110 219 1229836 1229932 1.090000e-14 91.6
11 TraesCS6A01G053800 chr4B 85.041 1464 102 61 797 2194 653977 652565 0.000000e+00 1382.0
12 TraesCS6A01G053800 chr4B 89.189 148 14 2 373 519 654502 654356 1.740000e-42 183.0
13 TraesCS6A01G053800 chr4B 90.361 83 4 2 137 219 654735 654657 3.880000e-19 106.0
14 TraesCS6A01G053800 chr4A 87.121 1188 86 39 962 2106 603540591 603539428 0.000000e+00 1284.0
15 TraesCS6A01G053800 chr4A 83.789 475 67 9 1204 1670 103068740 103069212 2.600000e-120 442.0
16 TraesCS6A01G053800 chrUn 88.739 222 15 4 2631 2849 46249414 46249628 2.180000e-66 263.0
17 TraesCS6A01G053800 chr5B 86.486 222 18 4 2631 2849 707855797 707856009 1.710000e-57 233.0
18 TraesCS6A01G053800 chr7B 89.503 181 16 2 2672 2849 719726081 719725901 2.860000e-55 226.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G053800 chr6A 27771664 27774512 2848 False 5262.0 5262 100.0000 1 2849 1 chr6A.!!$F1 2848
1 TraesCS6A01G053800 chr6D 26349937 26352534 2597 False 3265.0 3265 89.5790 1 2619 1 chr6D.!!$F1 2618
2 TraesCS6A01G053800 chr6B 48550821 48553300 2479 False 1551.0 2828 91.6020 1 2579 2 chr6B.!!$F3 2578
3 TraesCS6A01G053800 chr4D 1229836 1232328 2492 False 831.8 1572 82.0485 110 2579 2 chr4D.!!$F1 2469
4 TraesCS6A01G053800 chr4B 652565 654735 2170 True 557.0 1382 88.1970 137 2194 3 chr4B.!!$R1 2057
5 TraesCS6A01G053800 chr4A 603539428 603540591 1163 True 1284.0 1284 87.1210 962 2106 1 chr4A.!!$R1 1144

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
687 840 0.32336 TTTCGATCCAGGGCCCTTTG 60.323 55.0 26.1 17.44 0.0 2.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2297 2667 0.963962 CAATGCCAGGCTTCTTGTGT 59.036 50.0 14.15 0.0 0.0 3.72 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 73 9.660180 GTAGCAGGATAGCTAGCTTAATTAATT 57.340 33.333 24.88 5.89 46.90 1.40
219 231 5.469421 CACCACGTTACCCACTGTAAAATAA 59.531 40.000 0.00 0.00 41.00 1.40
232 257 4.333690 TGTAAAATAAAAGGGGTGCGCTA 58.666 39.130 9.73 0.00 0.00 4.26
233 258 4.396790 TGTAAAATAAAAGGGGTGCGCTAG 59.603 41.667 9.73 0.00 0.00 3.42
281 311 9.665719 AAACAATGACATCATGTACACATACTA 57.334 29.630 0.00 0.00 36.56 1.82
283 313 9.665719 ACAATGACATCATGTACACATACTAAA 57.334 29.630 0.00 0.00 36.56 1.85
357 387 6.237411 GCATAACATGTGTATCGATCGATCTG 60.237 42.308 32.50 22.60 36.17 2.90
435 504 1.272092 ACCCATCAACACACCTCATGG 60.272 52.381 0.00 0.00 39.83 3.66
456 530 1.280421 ACCCTCTCCATGACAAAGCTC 59.720 52.381 0.00 0.00 0.00 4.09
508 582 4.079672 TGGTCTTCCTCTTCTACCCTCTAG 60.080 50.000 0.00 0.00 34.23 2.43
509 583 3.887110 GTCTTCCTCTTCTACCCTCTAGC 59.113 52.174 0.00 0.00 0.00 3.42
510 584 3.789274 TCTTCCTCTTCTACCCTCTAGCT 59.211 47.826 0.00 0.00 0.00 3.32
511 585 4.976442 TCTTCCTCTTCTACCCTCTAGCTA 59.024 45.833 0.00 0.00 0.00 3.32
552 664 2.319844 CCCCAAGAAAAAGGAGCAACT 58.680 47.619 0.00 0.00 0.00 3.16
572 684 9.979578 AGCAACTAAAATCTCATACTAGATCTG 57.020 33.333 5.18 0.00 35.10 2.90
594 732 1.210478 TGATGGGAGCTAGCTGGTTTC 59.790 52.381 24.99 13.91 0.00 2.78
625 763 4.559300 GCAATTTCATGGCGCATAAGGTAT 60.559 41.667 10.83 0.00 0.00 2.73
630 776 5.159273 TCATGGCGCATAAGGTATTGATA 57.841 39.130 10.83 0.00 0.00 2.15
633 779 5.159273 TGGCGCATAAGGTATTGATATCA 57.841 39.130 10.83 0.00 0.00 2.15
635 781 6.179756 TGGCGCATAAGGTATTGATATCATT 58.820 36.000 10.83 5.79 0.00 2.57
638 784 8.028938 GGCGCATAAGGTATTGATATCATTTTT 58.971 33.333 10.83 0.74 0.00 1.94
677 823 3.603158 TCGATCAGGTTTTTCGATCCA 57.397 42.857 0.00 0.00 37.01 3.41
680 826 2.489938 TCAGGTTTTTCGATCCAGGG 57.510 50.000 0.00 0.00 0.00 4.45
687 840 0.323360 TTTCGATCCAGGGCCCTTTG 60.323 55.000 26.10 17.44 0.00 2.77
698 864 1.739667 GCCCTTTGCCGTCTTGTTT 59.260 52.632 0.00 0.00 0.00 2.83
702 868 2.418060 CCCTTTGCCGTCTTGTTTTTGT 60.418 45.455 0.00 0.00 0.00 2.83
730 898 4.425577 AATCAAAAGCTAACAAGGAGCG 57.574 40.909 0.00 0.00 44.98 5.03
750 918 2.073252 GATTCCCAATCCCCAGTTCC 57.927 55.000 0.00 0.00 31.60 3.62
751 919 0.636647 ATTCCCAATCCCCAGTTCCC 59.363 55.000 0.00 0.00 0.00 3.97
752 920 1.514864 TTCCCAATCCCCAGTTCCCC 61.515 60.000 0.00 0.00 0.00 4.81
753 921 2.245379 CCCAATCCCCAGTTCCCCA 61.245 63.158 0.00 0.00 0.00 4.96
754 922 1.000359 CCAATCCCCAGTTCCCCAC 60.000 63.158 0.00 0.00 0.00 4.61
755 923 1.378514 CAATCCCCAGTTCCCCACG 60.379 63.158 0.00 0.00 0.00 4.94
783 979 9.624373 ACATATGCTGAATCCCATCTATATTTC 57.376 33.333 1.58 0.00 0.00 2.17
863 1076 7.649533 TTTGTATGCTCAATTTCAGATCCAT 57.350 32.000 0.00 0.00 0.00 3.41
868 1081 3.490419 GCTCAATTTCAGATCCATGGCAC 60.490 47.826 6.96 3.18 0.00 5.01
870 1083 1.683943 ATTTCAGATCCATGGCACCG 58.316 50.000 6.96 0.00 0.00 4.94
873 1086 1.078214 CAGATCCATGGCACCGTGT 60.078 57.895 6.96 0.00 0.00 4.49
874 1087 1.078214 AGATCCATGGCACCGTGTG 60.078 57.895 6.96 0.25 36.51 3.82
886 1099 2.281070 CGTGTGGTGAAGGCAGCT 60.281 61.111 0.00 0.00 42.84 4.24
887 1100 2.610694 CGTGTGGTGAAGGCAGCTG 61.611 63.158 10.11 10.11 42.84 4.24
941 1174 0.673644 CCGCCCTTGGAACTACACAG 60.674 60.000 0.00 0.00 0.00 3.66
978 1219 2.189594 TCAAGCAAGCTGTAGCACAT 57.810 45.000 6.65 0.00 45.16 3.21
1614 1877 2.588877 CCCGTCATGGTGATCGCC 60.589 66.667 18.84 18.84 35.15 5.54
1671 1934 4.176851 GACGACGCCGAGGAGGAC 62.177 72.222 0.00 0.00 45.00 3.85
1875 2174 5.604231 ACCTAGCATCAATCAATCAGGAGTA 59.396 40.000 0.00 0.00 0.00 2.59
1891 2191 1.736126 GAGTAGTCCATGTGTCGACGA 59.264 52.381 11.62 0.00 34.10 4.20
1906 2209 2.002586 CGACGATTCCAAGCATCAAGT 58.997 47.619 0.00 0.00 0.00 3.16
1917 2220 2.903798 AGCATCAAGTTCAGCTAGCTC 58.096 47.619 16.15 3.70 35.19 4.09
1923 2226 0.041833 AGTTCAGCTAGCTCCTCCCA 59.958 55.000 16.15 0.00 0.00 4.37
2039 2371 9.669887 TTTGCTTATTATCTGCCAAAAATCATT 57.330 25.926 0.00 0.00 0.00 2.57
2150 2487 5.567138 AAAAACAGAACTCTCCAAGTGTG 57.433 39.130 0.00 0.00 38.58 3.82
2176 2521 6.948886 TGACTCTTATATACCCCATCTCTGAC 59.051 42.308 0.00 0.00 0.00 3.51
2187 2532 2.479275 CCATCTCTGACTATTGCATGCG 59.521 50.000 14.09 0.35 0.00 4.73
2191 2536 4.301628 TCTCTGACTATTGCATGCGTATG 58.698 43.478 14.09 9.36 37.36 2.39
2311 2681 3.679389 AGTATGAACACAAGAAGCCTGG 58.321 45.455 0.00 0.00 0.00 4.45
2374 2757 3.084786 AGATTAACCAGTTCTGCTTGGC 58.915 45.455 0.00 0.00 0.00 4.52
2380 2763 0.245539 CAGTTCTGCTTGGCCCAATG 59.754 55.000 0.00 0.00 0.00 2.82
2461 2845 9.533253 ACTTTATTTGAGTCATTTTTCCACAAG 57.467 29.630 0.00 0.00 0.00 3.16
2562 2947 1.174712 GCCATGACTGCACAAGGTGT 61.175 55.000 0.00 0.00 35.75 4.16
2642 3028 3.996614 AAAAACCTCCCCGCATCG 58.003 55.556 0.00 0.00 0.00 3.84
2643 3029 2.340328 AAAAACCTCCCCGCATCGC 61.340 57.895 0.00 0.00 0.00 4.58
2644 3030 2.764637 AAAAACCTCCCCGCATCGCT 62.765 55.000 0.00 0.00 0.00 4.93
2645 3031 3.682292 AAACCTCCCCGCATCGCTC 62.682 63.158 0.00 0.00 0.00 5.03
2710 3096 3.719121 GCTTCAGGCCTCCTCTCA 58.281 61.111 0.00 0.00 34.27 3.27
2711 3097 2.219989 GCTTCAGGCCTCCTCTCAT 58.780 57.895 0.00 0.00 34.27 2.90
2712 3098 0.106521 GCTTCAGGCCTCCTCTCATC 59.893 60.000 0.00 0.00 34.27 2.92
2713 3099 0.758123 CTTCAGGCCTCCTCTCATCC 59.242 60.000 0.00 0.00 0.00 3.51
2714 3100 0.692419 TTCAGGCCTCCTCTCATCCC 60.692 60.000 0.00 0.00 0.00 3.85
2715 3101 1.074623 CAGGCCTCCTCTCATCCCT 60.075 63.158 0.00 0.00 0.00 4.20
2716 3102 0.693767 CAGGCCTCCTCTCATCCCTT 60.694 60.000 0.00 0.00 0.00 3.95
2717 3103 0.399806 AGGCCTCCTCTCATCCCTTC 60.400 60.000 0.00 0.00 0.00 3.46
2718 3104 1.414866 GGCCTCCTCTCATCCCTTCC 61.415 65.000 0.00 0.00 0.00 3.46
2719 3105 1.414866 GCCTCCTCTCATCCCTTCCC 61.415 65.000 0.00 0.00 0.00 3.97
2720 3106 0.267356 CCTCCTCTCATCCCTTCCCT 59.733 60.000 0.00 0.00 0.00 4.20
2721 3107 1.715785 CTCCTCTCATCCCTTCCCTC 58.284 60.000 0.00 0.00 0.00 4.30
2722 3108 0.266152 TCCTCTCATCCCTTCCCTCC 59.734 60.000 0.00 0.00 0.00 4.30
2723 3109 0.030705 CCTCTCATCCCTTCCCTCCA 60.031 60.000 0.00 0.00 0.00 3.86
2724 3110 1.415716 CCTCTCATCCCTTCCCTCCAT 60.416 57.143 0.00 0.00 0.00 3.41
2725 3111 1.977129 CTCTCATCCCTTCCCTCCATC 59.023 57.143 0.00 0.00 0.00 3.51
2726 3112 0.683973 CTCATCCCTTCCCTCCATCG 59.316 60.000 0.00 0.00 0.00 3.84
2727 3113 1.072159 CATCCCTTCCCTCCATCGC 59.928 63.158 0.00 0.00 0.00 4.58
2728 3114 2.150051 ATCCCTTCCCTCCATCGCC 61.150 63.158 0.00 0.00 0.00 5.54
2729 3115 4.241555 CCCTTCCCTCCATCGCCG 62.242 72.222 0.00 0.00 0.00 6.46
2730 3116 4.918201 CCTTCCCTCCATCGCCGC 62.918 72.222 0.00 0.00 0.00 6.53
2731 3117 4.918201 CTTCCCTCCATCGCCGCC 62.918 72.222 0.00 0.00 0.00 6.13
2788 3174 4.115199 GGTGGCGGGGCTCATCTT 62.115 66.667 0.00 0.00 0.00 2.40
2789 3175 2.514824 GTGGCGGGGCTCATCTTC 60.515 66.667 0.00 0.00 0.00 2.87
2790 3176 3.008517 TGGCGGGGCTCATCTTCA 61.009 61.111 0.00 0.00 0.00 3.02
2791 3177 2.377810 TGGCGGGGCTCATCTTCAT 61.378 57.895 0.00 0.00 0.00 2.57
2792 3178 1.599240 GGCGGGGCTCATCTTCATC 60.599 63.158 0.00 0.00 0.00 2.92
2793 3179 1.599240 GCGGGGCTCATCTTCATCC 60.599 63.158 0.00 0.00 0.00 3.51
2794 3180 1.072159 CGGGGCTCATCTTCATCCC 59.928 63.158 0.00 0.00 36.25 3.85
2795 3181 1.072159 GGGGCTCATCTTCATCCCG 59.928 63.158 0.00 0.00 37.85 5.14
2796 3182 1.599240 GGGCTCATCTTCATCCCGC 60.599 63.158 0.00 0.00 0.00 6.13
2797 3183 1.449353 GGCTCATCTTCATCCCGCT 59.551 57.895 0.00 0.00 0.00 5.52
2798 3184 0.602372 GGCTCATCTTCATCCCGCTC 60.602 60.000 0.00 0.00 0.00 5.03
2799 3185 0.943359 GCTCATCTTCATCCCGCTCG 60.943 60.000 0.00 0.00 0.00 5.03
2800 3186 0.319383 CTCATCTTCATCCCGCTCGG 60.319 60.000 0.48 0.48 0.00 4.63
2802 3188 0.104855 CATCTTCATCCCGCTCGGAA 59.895 55.000 10.28 0.00 46.47 4.30
2803 3189 0.390860 ATCTTCATCCCGCTCGGAAG 59.609 55.000 10.28 5.59 46.47 3.46
2804 3190 1.884926 CTTCATCCCGCTCGGAAGC 60.885 63.158 10.28 0.00 46.47 3.86
2805 3191 2.303549 CTTCATCCCGCTCGGAAGCT 62.304 60.000 10.28 0.00 46.47 3.74
2806 3192 1.040893 TTCATCCCGCTCGGAAGCTA 61.041 55.000 10.28 0.00 46.47 3.32
2807 3193 0.827925 TCATCCCGCTCGGAAGCTAT 60.828 55.000 10.28 0.00 46.47 2.97
2808 3194 0.034059 CATCCCGCTCGGAAGCTATT 59.966 55.000 10.28 0.00 46.47 1.73
2809 3195 0.034059 ATCCCGCTCGGAAGCTATTG 59.966 55.000 10.28 0.00 46.47 1.90
2810 3196 1.595382 CCCGCTCGGAAGCTATTGG 60.595 63.158 10.28 0.00 46.91 3.16
2811 3197 2.247437 CCGCTCGGAAGCTATTGGC 61.247 63.158 1.35 0.00 46.91 4.52
2812 3198 2.589492 CGCTCGGAAGCTATTGGCG 61.589 63.158 6.61 6.61 46.91 5.69
2813 3199 2.886782 GCTCGGAAGCTATTGGCGC 61.887 63.158 0.00 0.00 45.55 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 70 9.745880 CTGCATCTGAGAATATGCTTAAAAATT 57.254 29.630 7.88 0.00 46.87 1.82
68 71 7.866393 GCTGCATCTGAGAATATGCTTAAAAAT 59.134 33.333 7.88 0.00 46.87 1.82
69 72 7.067859 AGCTGCATCTGAGAATATGCTTAAAAA 59.932 33.333 7.88 0.00 46.87 1.94
70 73 6.544931 AGCTGCATCTGAGAATATGCTTAAAA 59.455 34.615 7.88 0.00 46.87 1.52
185 197 1.551883 GTAACGTGGTGGGGAGTACAT 59.448 52.381 0.00 0.00 0.00 2.29
219 231 0.107654 CTAAGCTAGCGCACCCCTTT 60.108 55.000 11.47 0.00 39.10 3.11
232 257 8.935844 GTTTTTAAATTTGCATAAGGCTAAGCT 58.064 29.630 0.00 0.00 45.15 3.74
233 258 8.716909 TGTTTTTAAATTTGCATAAGGCTAAGC 58.283 29.630 0.00 0.00 45.15 3.09
371 401 3.505680 CACACCTGCCTGCAAACTAATTA 59.494 43.478 0.00 0.00 0.00 1.40
435 504 1.280421 AGCTTTGTCATGGAGAGGGTC 59.720 52.381 0.00 0.00 0.00 4.46
571 683 0.543277 CCAGCTAGCTCCCATCAACA 59.457 55.000 16.15 0.00 0.00 3.33
572 684 0.543749 ACCAGCTAGCTCCCATCAAC 59.456 55.000 16.15 0.00 0.00 3.18
594 732 2.792674 CGCCATGAAATTGCAGCTAATG 59.207 45.455 0.00 0.00 34.03 1.90
638 784 5.230323 TCGATCTAGCTAGCTAGGAGAAA 57.770 43.478 38.82 25.81 44.45 2.52
680 826 0.104120 AAAACAAGACGGCAAAGGGC 59.896 50.000 0.00 0.00 43.74 5.19
687 840 3.701241 TCATGAACAAAAACAAGACGGC 58.299 40.909 0.00 0.00 0.00 5.68
698 864 8.939201 TGTTAGCTTTTGATTTCATGAACAAA 57.061 26.923 16.23 16.23 0.00 2.83
702 868 7.950512 TCCTTGTTAGCTTTTGATTTCATGAA 58.049 30.769 3.38 3.38 0.00 2.57
746 914 1.727467 GCATATGTGCGTGGGGAAC 59.273 57.895 4.29 0.00 42.28 3.62
747 915 4.234019 GCATATGTGCGTGGGGAA 57.766 55.556 4.29 0.00 42.28 3.97
771 939 9.482627 AAGAAAACGAGCTAGAAATATAGATGG 57.517 33.333 0.00 0.00 0.00 3.51
868 1081 3.357079 GCTGCCTTCACCACACGG 61.357 66.667 0.00 0.00 38.77 4.94
870 1083 2.912624 GCAGCTGCCTTCACCACAC 61.913 63.158 28.76 0.00 34.31 3.82
886 1099 3.398406 TGATTAGTTGACTTCTTGCGCA 58.602 40.909 5.66 5.66 0.00 6.09
887 1100 4.152402 TCTTGATTAGTTGACTTCTTGCGC 59.848 41.667 0.00 0.00 0.00 6.09
941 1174 4.512484 CTTGATCTGGTCTTCTTCTTCCC 58.488 47.826 0.00 0.00 0.00 3.97
978 1219 6.366340 CATCTCTCCACCTAACCTAACTCTA 58.634 44.000 0.00 0.00 0.00 2.43
1614 1877 3.423154 GCGTTGGCGAAGGTGGAG 61.423 66.667 3.11 0.00 41.33 3.86
1875 2174 1.135083 GGAATCGTCGACACATGGACT 60.135 52.381 17.16 0.00 31.70 3.85
1891 2191 3.428532 AGCTGAACTTGATGCTTGGAAT 58.571 40.909 0.00 0.00 30.96 3.01
1906 2209 1.343377 TGATGGGAGGAGCTAGCTGAA 60.343 52.381 24.99 0.82 0.00 3.02
1917 2220 1.637338 TCGATGAGGATGATGGGAGG 58.363 55.000 0.00 0.00 0.00 4.30
1923 2226 4.535294 AGGATGGATTTCGATGAGGATGAT 59.465 41.667 0.00 0.00 0.00 2.45
2135 2472 3.068873 AGAGTCACACACTTGGAGAGTTC 59.931 47.826 0.00 0.00 36.10 3.01
2150 2487 6.948886 TCAGAGATGGGGTATATAAGAGTCAC 59.051 42.308 0.00 0.00 0.00 3.67
2176 2521 4.568359 GGAGGATACATACGCATGCAATAG 59.432 45.833 19.57 7.07 35.39 1.73
2187 2532 6.595716 GTGAATTATGCAGGGAGGATACATAC 59.404 42.308 0.00 0.00 41.41 2.39
2191 2536 4.973168 TGTGAATTATGCAGGGAGGATAC 58.027 43.478 0.00 0.00 29.47 2.24
2279 2627 8.785329 TCTTGTGTTCATACTACAATTGCATA 57.215 30.769 5.05 0.00 34.22 3.14
2297 2667 0.963962 CAATGCCAGGCTTCTTGTGT 59.036 50.000 14.15 0.00 0.00 3.72
2374 2757 9.519191 TTATCTTGTATACATTGATCCATTGGG 57.481 33.333 18.95 0.00 0.00 4.12
2441 2824 9.712305 TTAAAACTTGTGGAAAAATGACTCAAA 57.288 25.926 0.00 0.00 0.00 2.69
2461 2845 5.153513 TGAGCAACATCAAGCGATTAAAAC 58.846 37.500 0.00 0.00 35.48 2.43
2491 2875 6.825721 GGAATGTGGAATGAGATTCAGTAACT 59.174 38.462 0.00 0.00 41.03 2.24
2625 3011 2.340328 GCGATGCGGGGAGGTTTTT 61.340 57.895 0.00 0.00 0.00 1.94
2626 3012 2.750237 GCGATGCGGGGAGGTTTT 60.750 61.111 0.00 0.00 0.00 2.43
2627 3013 3.682292 GAGCGATGCGGGGAGGTTT 62.682 63.158 0.00 0.00 0.00 3.27
2628 3014 4.162690 GAGCGATGCGGGGAGGTT 62.163 66.667 0.00 0.00 0.00 3.50
2693 3079 0.106521 GATGAGAGGAGGCCTGAAGC 59.893 60.000 12.00 0.00 42.60 3.86
2694 3080 0.758123 GGATGAGAGGAGGCCTGAAG 59.242 60.000 12.00 0.00 31.76 3.02
2695 3081 0.692419 GGGATGAGAGGAGGCCTGAA 60.692 60.000 12.00 0.00 31.76 3.02
2696 3082 1.074926 GGGATGAGAGGAGGCCTGA 60.075 63.158 12.00 0.00 31.76 3.86
2697 3083 0.693767 AAGGGATGAGAGGAGGCCTG 60.694 60.000 12.00 0.00 31.76 4.85
2698 3084 0.399806 GAAGGGATGAGAGGAGGCCT 60.400 60.000 3.86 3.86 36.03 5.19
2699 3085 1.414866 GGAAGGGATGAGAGGAGGCC 61.415 65.000 0.00 0.00 0.00 5.19
2700 3086 1.414866 GGGAAGGGATGAGAGGAGGC 61.415 65.000 0.00 0.00 0.00 4.70
2701 3087 0.267356 AGGGAAGGGATGAGAGGAGG 59.733 60.000 0.00 0.00 0.00 4.30
2702 3088 1.715785 GAGGGAAGGGATGAGAGGAG 58.284 60.000 0.00 0.00 0.00 3.69
2703 3089 0.266152 GGAGGGAAGGGATGAGAGGA 59.734 60.000 0.00 0.00 0.00 3.71
2704 3090 0.030705 TGGAGGGAAGGGATGAGAGG 60.031 60.000 0.00 0.00 0.00 3.69
2705 3091 1.977129 GATGGAGGGAAGGGATGAGAG 59.023 57.143 0.00 0.00 0.00 3.20
2706 3092 1.759201 CGATGGAGGGAAGGGATGAGA 60.759 57.143 0.00 0.00 0.00 3.27
2707 3093 0.683973 CGATGGAGGGAAGGGATGAG 59.316 60.000 0.00 0.00 0.00 2.90
2708 3094 1.410850 GCGATGGAGGGAAGGGATGA 61.411 60.000 0.00 0.00 0.00 2.92
2709 3095 1.072159 GCGATGGAGGGAAGGGATG 59.928 63.158 0.00 0.00 0.00 3.51
2710 3096 2.150051 GGCGATGGAGGGAAGGGAT 61.150 63.158 0.00 0.00 0.00 3.85
2711 3097 2.768344 GGCGATGGAGGGAAGGGA 60.768 66.667 0.00 0.00 0.00 4.20
2712 3098 4.241555 CGGCGATGGAGGGAAGGG 62.242 72.222 0.00 0.00 0.00 3.95
2713 3099 4.918201 GCGGCGATGGAGGGAAGG 62.918 72.222 12.98 0.00 0.00 3.46
2714 3100 4.918201 GGCGGCGATGGAGGGAAG 62.918 72.222 12.98 0.00 0.00 3.46
2771 3157 4.115199 AAGATGAGCCCCGCCACC 62.115 66.667 0.00 0.00 0.00 4.61
2772 3158 2.514824 GAAGATGAGCCCCGCCAC 60.515 66.667 0.00 0.00 0.00 5.01
2773 3159 2.329539 GATGAAGATGAGCCCCGCCA 62.330 60.000 0.00 0.00 0.00 5.69
2774 3160 1.599240 GATGAAGATGAGCCCCGCC 60.599 63.158 0.00 0.00 0.00 6.13
2775 3161 1.599240 GGATGAAGATGAGCCCCGC 60.599 63.158 0.00 0.00 0.00 6.13
2776 3162 1.072159 GGGATGAAGATGAGCCCCG 59.928 63.158 0.00 0.00 32.50 5.73
2777 3163 1.072159 CGGGATGAAGATGAGCCCC 59.928 63.158 0.00 0.00 35.30 5.80
2778 3164 1.599240 GCGGGATGAAGATGAGCCC 60.599 63.158 0.00 0.00 35.40 5.19
2779 3165 0.602372 GAGCGGGATGAAGATGAGCC 60.602 60.000 0.00 0.00 0.00 4.70
2780 3166 0.943359 CGAGCGGGATGAAGATGAGC 60.943 60.000 0.00 0.00 0.00 4.26
2781 3167 0.319383 CCGAGCGGGATGAAGATGAG 60.319 60.000 0.00 0.00 38.47 2.90
2782 3168 0.755327 TCCGAGCGGGATGAAGATGA 60.755 55.000 9.29 0.00 40.94 2.92
2783 3169 0.104855 TTCCGAGCGGGATGAAGATG 59.895 55.000 9.29 0.00 46.62 2.90
2784 3170 0.390860 CTTCCGAGCGGGATGAAGAT 59.609 55.000 9.29 0.00 46.62 2.40
2785 3171 1.816537 CTTCCGAGCGGGATGAAGA 59.183 57.895 9.29 0.00 46.62 2.87
2786 3172 1.884926 GCTTCCGAGCGGGATGAAG 60.885 63.158 9.29 6.42 46.62 3.02
2787 3173 2.186903 GCTTCCGAGCGGGATGAA 59.813 61.111 9.29 0.00 46.62 2.57
2796 3182 2.589492 CGCGCCAATAGCTTCCGAG 61.589 63.158 0.00 0.00 40.39 4.63
2797 3183 2.584970 CGCGCCAATAGCTTCCGA 60.585 61.111 0.00 0.00 40.39 4.55
2798 3184 3.640000 CCGCGCCAATAGCTTCCG 61.640 66.667 0.00 0.00 40.39 4.30
2799 3185 3.279875 CCCGCGCCAATAGCTTCC 61.280 66.667 0.00 0.00 40.39 3.46
2800 3186 3.279875 CCCCGCGCCAATAGCTTC 61.280 66.667 0.00 0.00 40.39 3.86


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.